edu.mssm.crover.util
Class AlignmentReader

java.lang.Object
  |
  +--edu.mssm.crover.util.AlignmentReader

public class AlignmentReader
extends java.lang.Object

Class to read the sequences in a two-sequence alignment, and then find pairs of residues that are conserved or switched between them.

Author:
luce

Constructor Summary
AlignmentReader()
           
 
Method Summary
 java.util.Hashtable fillConservedResidues()
           
 java.util.Collection getSequences()
           
static void main(java.lang.String[] args)
           
 void printConservedResidues(java.io.File f, boolean all)
           
 void readAlignment(java.io.File f)
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

AlignmentReader

public AlignmentReader()
Method Detail

readAlignment

public void readAlignment(java.io.File f)
                   throws java.io.IOException
java.io.IOException

getSequences

public java.util.Collection getSequences()

fillConservedResidues

public java.util.Hashtable fillConservedResidues()

printConservedResidues

public void printConservedResidues(java.io.File f,
                                   boolean all)
                            throws java.io.IOException
java.io.IOException

main

public static void main(java.lang.String[] args)


Copyright @ 2003 Mount Sinai School of Medicine. All Rights Reserved.